Fluorine in PDB 6lcp: Cryo-Em Structure of DNF1 From Chaetomium Thermophilum in the E2P State

All present enzymatic activity of Cryo-Em Structure of DNF1 From Chaetomium Thermophilum in the E2P State:
7.6.2.1;

The structure of Cryo-Em Structure of DNF1 From Chaetomium Thermophilum in the E2P State also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Fluorine atom in the Cryo-Em Structure of DNF1 From Chaetomium Thermophilum in the E2P State (pdb code 6lcp). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 3 binding sites of Fluorine where determined in the Cryo-Em Structure of DNF1 From Chaetomium Thermophilum in the E2P State, PDB code: 6lcp:
Jump to Fluorine binding site number: 1; 2; 3;

Fluorine binding site 1 out of 3 in the Cryo-Em Structure of DNF1 From Chaetomium Thermophilum in the E2P State


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Cryo-Em Structure of DNF1 From Chaetomium Thermophilum in the E2P State within 5.0Å range: probe atom residue distance (Å) B Occ A:F2002 b:26.8 occ:1.00 F1 A:BEF2002 0.0 26.8 1.0 BE A:BEF2002 1.8 26.8 1.0 OD1 A:ASP606 1.8 23.0 1.0 NZ A:LYS1037 2.6 28.4 1.0 CG A:ASP606 2.7 23.0 1.0 ND2 A:ASN1060 2.8 30.4 1.0 F3 A:BEF2002 3.0 26.8 1.0 F2 A:BEF2002 3.0 26.8 1.0 OD2 A:ASP606 3.2 23.0 1.0 CG A:ASN1060 3.6 30.4 1.0 MG A:MG2001 3.6 24.7 1.0 OD2 A:ASP1061 3.8 28.5 1.0 CE A:LYS1037 3.9 28.4 1.0 OD1 A:ASN1060 4.0 30.4 1.0 CB A:ASP606 4.0 23.0 1.0 OD1 A:ASP1061 4.1 28.5 1.0 N A:GLY920 4.2 36.1 1.0 CG A:ASP1061 4.3 28.5 1.0 N A:GLY373 4.5 47.6 1.0 CB A:ASN1060 4.6 30.4 1.0 CA A:GLY373 4.6 47.6 1.0 CA A:THR919 4.6 31.8 1.0 CA A:ASP606 4.6 23.0 1.0 C A:THR919 4.7 31.8 1.0 OG1 A:THR919 4.8 31.8 1.0 N A:LYS607 4.8 23.1 1.0 O A:LEU918 4.9 21.7 1.0

Fluorine binding site 2 out of 3 in the Cryo-Em Structure of DNF1 From Chaetomium Thermophilum in the E2P State


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of Cryo-Em Structure of DNF1 From Chaetomium Thermophilum in the E2P State within 5.0Å range: probe atom residue distance (Å) B Occ A:F2002 b:26.8 occ:1.00 F2 A:BEF2002 0.0 26.8 1.0 BE A:BEF2002 1.8 26.8 1.0 N A:THR608 2.4 26.6 1.0 OD2 A:ASP606 2.6 23.0 1.0 CB A:THR608 2.7 26.6 1.0 OG1 A:THR608 2.7 26.6 1.0 OD1 A:ASP606 2.8 23.0 1.0 CG A:ASP606 2.9 23.0 1.0 CA A:THR608 2.9 26.6 1.0 F1 A:BEF2002 3.0 26.8 1.0 F3 A:BEF2002 3.1 26.8 1.0 N A:GLY609 3.3 23.6 1.0 MG A:MG2001 3.4 24.7 1.0 C A:LYS607 3.5 23.1 1.0 N A:LYS607 3.5 23.1 1.0 C A:THR608 3.6 26.6 1.0 CA A:GLY373 3.8 47.6 1.0 CA A:LYS607 4.0 23.1 1.0 CG2 A:THR608 4.1 26.6 1.0 OG1 A:THR919 4.2 31.8 1.0 CB A:ASP606 4.2 23.0 1.0 O A:LYS607 4.5 23.1 1.0 CB A:LYS607 4.5 23.1 1.0 C A:ASP606 4.6 23.0 1.0 CA A:GLY609 4.6 23.6 1.0 O A:GLY373 4.7 47.6 1.0 N A:GLY373 4.7 47.6 1.0 CA A:ASP606 4.8 23.0 1.0 C A:GLY373 4.8 47.6 1.0 O A:THR608 4.8 26.6 1.0 CB A:THR919 4.8 31.8 1.0

Fluorine binding site 3 out of 3 in the Cryo-Em Structure of DNF1 From Chaetomium Thermophilum in the E2P State


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of Cryo-Em Structure of DNF1 From Chaetomium Thermophilum in the E2P State within 5.0Å range: probe atom residue distance (Å) B Occ A:F2002 b:26.8 occ:1.00 F3 A:BEF2002 0.0 26.8 1.0 BE A:BEF2002 1.8 26.8 1.0 O A:LYS369 2.7 49.9 1.0 CA A:GLY373 2.9 47.6 1.0 F1 A:BEF2002 3.0 26.8 1.0 F2 A:BEF2002 3.1 26.8 1.0 MG A:MG2001 3.1 24.7 1.0 N A:GLY373 3.1 47.6 1.0 C A:ASP372 3.5 53.1 1.0 ND2 A:ASN1060 3.6 30.4 1.0 C A:LYS369 3.8 49.9 1.0 O A:ASP372 3.9 53.1 1.0 OD2 A:ASP606 3.9 23.0 1.0 OD1 A:ASP606 4.2 23.0 1.0 C A:GLY373 4.2 47.6 1.0 CB A:THR608 4.3 26.6 1.0 OD1 A:ASN1060 4.3 30.4 1.0 CA A:ASP372 4.3 53.1 1.0 O A:LEU371 4.4 50.1 1.0 OG1 A:THR608 4.4 26.6 1.0 CG A:ASN1060 4.4 30.4 1.0 O A:ASN370 4.5 49.8 1.0 CG A:ASP606 4.5 23.0 1.0 CA A:LYS369 4.5 49.9 1.0 C A:LEU371 4.6 50.1 1.0 N A:ASP372 4.6 53.1 1.0 C A:ASN370 4.6 49.8 1.0 OD2 A:ASP1061 4.7 28.5 1.0 N A:ASN370 4.8 49.8 1.0 O A:GLY373 4.8 47.6 1.0 CG A:LYS369 4.9 49.9 1.0 CA A:ASN370 4.9 49.8 1.0

Y.He, J.Xu, X.Wu, L.Li. Structures of A P4-Atpase Lipid Flippase in Lipid Bilayers. Protein Cell 2020.
ISSN: ESSN 1674-8018
PubMed: 32303992
DOI: 10.1007/S13238-020-00712-Y